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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Interaction pattern similarity measured by Grim
You can zoom onto the graph by using the mouse to make a selection

Binding Modes are compared using Grim.
For more information, please see the following publication: Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65


Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
2dv5 SAH Diphthine synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2dv5 SAHDiphthine synthase / 1.139
2dsi SAHDiphthine synthase / 1.116
2pb6 SAHDiphthine synthase / 1.114
2e8r SAHDiphthine synthase / 1.113
2dv3 SAHDiphthine synthase / 1.111
2eeq SAHDiphthine synthase / 1.099
2dv4 SAHDiphthine synthase / 1.098
2e16 SAHDiphthine synthase / 1.098
2e08 SAHDiphthine synthase / 1.097
2e17 SAHDiphthine synthase / 1.096
2pb4 SAHDiphthine synthase / 1.094
2dsh SAHDiphthine synthase / 1.093
2egs SAHDiphthine synthase / 1.093
2p6l SAHDiphthine synthase / 1.093
2pcg SAHDiphthine synthase / 1.092
1wng SAHDiphthine synthase / 1.089
2pck SAHDiphthine synthase / 1.089
2p5f SAHDiphthine synthase / 1.082
2eni SAHDiphthine synthase / 1.080
2owk SAHDiphthine synthase / 1.080
2p6k SAHDiphthine synthase / 1.080
2pb5 SAHDiphthine synthase / 1.080
2dsg SAHDiphthine synthase / 1.079
2el3 SAHDiphthine synthase / 1.078
2p6d SAHDiphthine synthase / 1.078
2e8s SAHDiphthine synthase / 1.077
2ek4 SAHDiphthine synthase / 1.077
2ek7 SAHDiphthine synthase / 1.077
2emu SAHDiphthine synthase / 1.076
2dv7 SAHDiphthine synthase / 1.075
2eh4 SAHDiphthine synthase / 1.075
2emr SAHDiphthine synthase / 1.075
2en5 SAHDiphthine synthase / 1.075
1vce SAHDiphthine synthase / 1.074
2dxv SAHDiphthine synthase / 1.074
2e15 SAHDiphthine synthase / 1.074
2ed5 SAHDiphthine synthase / 1.074
2ejk SAHDiphthine synthase / 1.074
2eka SAHDiphthine synthase / 1.074
2owg SAHDiphthine synthase / 1.074
2dxw SAHDiphthine synthase / 1.073
2dxx SAHDiphthine synthase / 1.073
2ek3 SAHDiphthine synthase / 1.073
2el0 SAHDiphthine synthase / 1.073
2eld SAHDiphthine synthase / 1.073
2p5c SAHDiphthine synthase / 1.071
2ek2 SAHDiphthine synthase / 1.070
2e8q SAHDiphthine synthase / 1.065
2eh5 SAHDiphthine synthase / 1.064
2p6i SAHDiphthine synthase / 1.063
2p9d SAHDiphthine synthase / 1.061
2pcm SAHDiphthine synthase / 1.060
2owv SAHDiphthine synthase / 1.059
2owu SAHDiphthine synthase / 1.058
2pca SAHDiphthine synthase / 1.058
2ele SAHDiphthine synthase / 1.057
2pch SAHDiphthine synthase / 1.057
2e07 SAHDiphthine synthase / 1.056
2e4n SAHDiphthine synthase / 1.056
2e7r SAHDiphthine synthase / 1.056
2egb SAHDiphthine synthase / 1.056
2egl SAHDiphthine synthase / 1.056
2ehl SAHDiphthine synthase / 1.054
2huq SAHDiphthine synthase / 1.054
2ejj SAHDiphthine synthase / 1.046
2dek SAHDiphthine synthase / 1.040
2eh2 SAHDiphthine synthase / 1.038
2z6r SAHDiphthine synthase / 1.038
2e8h SAHDiphthine synthase / 1.035
2huv SAHDiphthine synthase / 1.021
2p2x SAHDiphthine synthase / 0.999
2hut SAHDiphthine synthase / 0.988
2pci SAHDiphthine synthase / 0.958
2hux SAHDiphthine synthase / 0.952
2hr8 SAHDiphthine synthase / 0.896
2ejz SAHDiphthine synthase / 0.889
2owf SAHDiphthine synthase / 0.786
2egv SAMRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.689
1kor ANPArgininosuccinate synthase / 0.688
1jgt APCCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.683
2e0n SAHPrecorrin-2 C20-methyltransferase / 0.680
1s4d SAHUroporphyrinogen-III C-methyltransferase 2.1.1.107 0.669
2zvb SAHPrecorrin-3 C17-methyltransferase / 0.669
2hma SAMtRNA-specific 2-thiouridylase MnmA / 0.668
4xw4 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.666
1mjh ATPUniversal stress protein MJ0577 / 0.665
4xw5 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.661
5a7y SAHtRNA (adenine(9)-N1)-methyltransferase 2.1.1.218 0.661
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.660
1id0 ANPSensor protein PhoQ 2.7.13.3 0.658
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.658
2ha8 SAHProbable methyltransferase TARBP1 / 0.657
1cbf SAHCobalt-precorrin-4 C(11)-methyltransferase 2.1.1.271 0.656
3vpb ADPGlutamate--LysW ligase ArgX 6.3.2 0.656
3ndc SAHPrecorrin-4 C(11)-methyltransferase 2.1.1.133 0.655